Foreword |
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ix | |
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Preface |
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xi | |
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Contributors |
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xv | |
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PART I BASIC CONCEPTS OF DRUG METABOLISM AND DISPOSITION |
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1 | (254) |
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1 Progression of Drug Metabolism |
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3 | (10) |
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1.2 Historical Phases of Drug Metabolism |
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1.2.1 The "Chemistry" Phase (1950-1980) |
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1.2.2 The "Biochemistry" Phase (1975---Present) |
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1.2.3 The "Genetics" Phase (1990---Present) |
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1.2.4 The "Biology" Phase (2010 and Beyond) |
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1.3 Next Step in the Progression of DM |
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1.3.1 New Regulatory Expectation |
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1.3.2 New Challenges for Technology |
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1.4 Perspective on the Magnitude of the Challenge |
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1.4.1 Ultimate Limits on Metabolite Quantitation |
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1.4.2 Practical Limits on Metabolite Quantitation |
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1.4.3 Natural Limit Due to Dose Size |
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1.5 Are There More Sensitive Alternatives to MS? |
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2 Common Biotransformation Reactions |
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13 | (30) |
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2.2.1 Cytochrome P450 Oxidative Reactions |
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2.2.2 Oxidations by Flavin Monooxygenases |
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2.2.3 Oxidations by Monoamine Oxidases |
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2.2.4 Oxidations by Molybdenum Hydroxylases |
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2.2.5 Oxidations by Alcohol and Aldehyde Dehydrogenases |
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2.2.6 Oxidations by Peroxidases |
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2.3.1 Reductions by Cytochrome P450s |
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2.3.2 Reductions by Molybdenum-Containing Enzymes |
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2.3.3 Reductions by Alcohol Dehydrogenases and Carbonyl Reductases |
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2.3.4 Reductions by Cytochrome P450 Reductase and Quinone Oxidoreductase |
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2.3.5 Reductions by Intestinal Microflora |
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2.4.1 Hydrolysis by Epoxide Hydrolases |
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2.4.2 Hydrolysis of Esters, Amides, and Related Structures |
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2.5 Glucuronidation Reactions |
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2.5.1 Glucuronidation of Hydroxy Groups |
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2.5.2 Glucuronidation of Amines and Amides |
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2.5.3 Glucuronidation of Thiols and Thiocarbonyl Compounds |
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2.5.4 Glucuronidation of Relatively Acidic Carbon Atoms |
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2.6.1 Sulfation of Alcohols |
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2.6.2 Sulfation of Hydroxylamines and Hydroxyamides |
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2.6.3 Sulfation of Amines and Amides |
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2.7.1 Acetylation of Primary Amines and Hydrazines |
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2.7.2 Amino Acid Conjugation of Carboxylic Acids |
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2.7.3 Chemical Acylations |
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2.8 Methylation Reactions |
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2.8.1 Methylation of Catechols |
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2.8.2 Methylation of Thiols |
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2.8.3 Methylation of Amines |
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2.9 Glutathione Conjugation Reactions |
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2.9.1 GSH Conjugation of Epoxides |
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2.9.2 GSH Conjugation of Conjugated Enone/Enal and Similar Systems |
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2.9.3 GSH Conjugations at Saturated and Unsaturated Carbon Atoms |
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2.9.4 GSH Conjugation at Heteroatoms |
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3 Metabolic Activation of Organic Functional Groups Utilized in Medicinal Chemistry |
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43 | (40) |
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3.2 Bioactivation of Drugs |
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3.3 Experimental Strategies to Detect Reactive Metabolites |
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3.4 Functional Group Metabolism to Reactive Intermediates |
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3.4.1 Two-Electron Oxidations on Electron-Rich Aromatic Ring Systems |
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3.4.2 N-Hydroxylation of Anilines |
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3.4.4 Bioactivation of Reduced Thiols |
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3.4.5 Epoxidation of sp2 and sp Centers |
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3.4.6 Thiazolidinedione Ring Bioactivation |
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3.4.7 α, β-Unsaturated Carbonyl Compounds |
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3.5 Structural Alerts and Drug Design |
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3.6 Reactive Metabolite Trapping and Covalent Binding Studies as Predictors of Idiosyncratic Drug Toxicity |
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3.7 Dose as an Important Mitigating Factor for IADRs |
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4 Drug-Metabolizing Enzymes, Transporters, and Drug---Drug Interactions |
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83 | (68) |
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4.2 Drug-Metabolizing Enzymes |
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4.2.2 UDP---Glucuronosyl transferases |
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4.2.4 Glutathione-S-Transferases |
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4.2.5 Regulation of Human CYPs |
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4.3 Metabolism-Based DDIs |
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4.3.1 Reaction Phenotyping |
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4.3.2 Reversible CYP Inhibition |
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4.3.3 Time-Dependent Inhibition |
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4.3.4 Prediction of Clinical DDIs from CYP Induction |
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4.3.5 Factors Affecting DDI Prediction |
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4.5.1 Key ADME Transporters |
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4.6 Tools of the Transporter Trade |
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4.6.1 Absorption and Permeability |
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4.6.2 Caco-2 Permeability |
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4.6.4 Immobilized Artificial Membrane |
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4.7 Uptake and Efflux Transporter Tools |
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4.7.1 Transfected Cell Lines |
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4.7.3 Transwell Efflux Assays |
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4.7.5 Hepatocyte Sandwich Cultures |
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4.9.1 Cell Maintenance Systems |
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4.9.2 Robotic Liquid-Handling Systems |
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4.11 In Vitro---In Vivo Correlations |
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4.13 Transporter Conclusion |
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5 Experimental Models of Drug Metabolism and Disposition |
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151 | (46) |
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5.2 ADME Study Strategy in Drug Discovery |
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5.2.1 Step-by-Step Strategy |
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5.2.2 Issue-Driven Strategy |
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5.2.3 PK---PD and PK---TK Considerations |
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5.3 ADME Experimental Models |
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5.3.2 In Situ and Ex Vivo Models |
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5.3.4 Engineered Mouse Models |
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5.4.2 In vitro---In Vivo Discrepancy |
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5.4.3 Enzyme---Transporter Interplay |
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5.4.4 Interindividual Differences |
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5.4.5 Drug---Drug Interaction |
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5.4.6 Multiple Other Factors Affecting Metabolic Pathways |
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6 Principles of Pharmacokinetics: Predicting Human Pharmacokinetics in Drug Discovery |
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197 | (32) |
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6.1.1 General Introduction |
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6.1.2 Relationship between Drug Efficacy and Concentration |
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6.1.3 Prediction of Pharmacokinetics by Extrapolation from Animal Data |
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6.2 Physiological Pharmacokinetics |
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6.2.1 Why Is a Physiological Pharmacokinetic Model Necessary? |
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6.2.3 Volume of Distribution |
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6.2.4 Relationship between Intrinsic Clearance and Organ Clearance |
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6.2.5 Estimation of Permeability-Limited Clearance |
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6.3 Prediction of Absorption |
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6.3.1 Determinants of Bioavailability |
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6.3.3 Dosing Vehicle and Feeding State |
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6.3.4 Evaluation Methods for Absorption |
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6.3.5 Intestinal Availability |
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6.4.1 Plasma Protein Binding |
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6.4.2 Relationship between Drug Efficacy and Protein Binding |
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6.5 Metabolism and excretion |
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6.5.1 Estimation of Clearance |
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6.5.2 Estimation of Hepatic Intrinsic Clearance |
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6.5.3 Determination of Hepatic Intrinsic Metabolic Clearance from in vitro Experimental Data |
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6.5.4 Estimation of Renal Clearance |
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6.6 Drug---Drug interactions |
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6.6.1 Importance of Determining the Contribution Ratio for Prediction of Drug---Drug Interactions |
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6.6.2 Methods for Determination of the Contribution Ratio |
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6.7 Practical issues That Need to Be Considered |
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6.7.1 Evaluation of PK During the Exploratory Stage |
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6.7.2 Evaluation of PK During the Development Stage |
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Abbrevations and Notations |
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7 Drug Metabolism Research as Integral Part of Drug Discovery and Development Processes |
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229 | (26) |
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7.2.2 Prediction of Human Clearance |
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7.2.3 In vivo Methods to Study Metabolism |
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7.2.4 Screening Strategies |
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7.3 Metabolite Profiling/Mass Balance Studies |
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7.4 Safety Testing of Drug Metabolites |
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7.6 Assessment of Potential Toxicology of Metabolites |
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7.6.1 Reactive Metabolite Studies---General Considerations |
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7.6.2 Reactive Metabolite Studies---In Vitro |
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7.6.3 Reactive Metabolite Studies---In Vivo |
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7.6.4 Metabolite Contribution to Off-Target Toxicities |
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7.7 Assessment of Potential for Active Metabolites |
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7.7.1 Detection of Active Metabolites During Drug Discovery |
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PART II MASS SPECTROMETRY IN DRUG METABOLISM: PRINCIPLES AND COMMON PRACTICE |
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255 | (128) |
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8 Theory and Instrumentation of Mass Spectrometry |
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257 | (34) |
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8.1 Basic Concepts and Theory of Mass Spectrometry |
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8.1.1 Historical Perspective |
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8.2 Major Components of a Mass Spectrometer |
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8.3.1 Electron Impact Ionization |
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8.3.2 Electrospray Ionization |
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8.3.3 Chemical Ionization and Atmospheric Pressure Chemical Ionization |
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8.3.4 Atmospheric Pressure Photoionization |
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8.3.5 Matrix-Assisted Laser Desorption Ionization |
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8.3.6 Other Ionization Techniques |
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8.4.2 Ion Trap and Linear Ion Trap |
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8.4.3 Time-of-Flight Spectrometry |
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8.4.4 Fourier Transform Mass Spectrometry |
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9 Common Liquid Chromatography---Mass Spectrometry (LC---MS) Methodology for Metabolite Identification |
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291 | (30) |
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9.2 Strategies for Metabolite Identification |
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9.2.1 Detection of Metabolites |
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9.2.2 Structure Elucidation of Metabolites |
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9.4 Conclusions and Future Trends |
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10 Mass Spectral Interpretation |
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321 | (32) |
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10.1 Molecular Weight and Empirical Formula Determination |
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10.1.1 Formation of Adduct Ions |
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10.1.4 Accurate Mass Measurement |
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10.1.5 Double-Bond Equivalency (DBE) |
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10.2 Common Fragmentation Reactions |
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10.3 Practical Applications |
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10.3.1 Metabolite Profiling by LC---MS |
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10.3.2 Special Strategies for Characterization of Drug Metabolites by LC---MS |
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11 Techniques to Facilitate the Performance of Mass Spectrometry: Sample Preparation, Liquid Chromatography, and Non-Mass-Spectrometric Detection |
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353 | (30) |
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11.2 Sample Preparation for Bioanalysis |
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11.2.1 Protein Precipitation |
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11.2.2 Solid-Phase Extraction |
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11.2.3 Turbulent Flow Chromatography |
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11.2.4 Liquid---Liquid Extraction |
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11.2.5 Plasma and Blood Sample Preparation |
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11.3 Sample Preparation for Metabolite Profiling and Identification |
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11.3.1 In Vitro Sample Preparation |
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11.3.2 Plasma, Urine, and Bile Sample Preparation |
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11.3.3 Fecal and Tissue Sample Preparation |
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11.4 Liquid Chromatographic Separation in Bioanalysis |
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11.4.1 Basic Approach and Method Development |
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11.4.2 Splitting LC Flow for Introduction into MS |
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11.4.3 Stepping up Productivity with Fast LC Separations |
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11.4.4 Using SFC and MS for Chiral Bioanalysis |
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11.5 Liquid Chromatographic Separation Technologies in Metabolite Profiling |
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11.5.1 LC Methods for Metabolite Profiling of Nonradiolabeled Compounds |
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11.5.2 LC Methods for Metabolite Profiling of Radiolabeled Compounds |
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11.6 Liquid Chromatographic Detection |
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11.6.1 UV Absorbance Detection |
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11.6.2 Radioactivity Detection |
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11.6.3 Nuclear Magnetic Resoance |
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PART III APPLICATIONS OF NEW LC---MS TECHNIQUES IN DRUG METABOLISM, DISPOSITION |
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383 | (184) |
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12 Quantitative In Vitro ADME Assays Using LC---MS as a Part of Early Drug Metabolism Screening |
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385 | (22) |
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12.2 Metabolic Stability Assays |
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12.3 Drug Absorption and Permeability Assays |
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12.4 Cytochrome P450 (CYP) Assays |
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12.5 New Technology for High-Throughput Assays |
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13 High-Resolution Mass Spectrometry and Drug Metabolite Identification |
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407 | (42) |
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Russell J. Mortishire-Smith |
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13.2 Challenges Presented by Different Samples |
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13.3 Fundamental Advantage of High-Resolution Mass Spectrometry: Specificity/Selectivity in a Single Generic Method |
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13.4 High-Resolution Mass Spectrometry: Important Concepts |
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13.5 High-Resolution Instrumentation |
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13.6 Advantages of High-Resolution MS: The Concept of Mass Defect Filtration |
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13.7 Postprocessing Strategies for Identifying Metabolites in Complex High-Resolution Data Sets |
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13.7.1 Classical Metabolites |
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13.7.2 Identifying All Other Analyte-Specific Peaks |
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13.9 Background Subtraction |
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13.11 "All-in-One" Data Analysis |
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13.12 Rationalization of Novel Metabolites |
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13.13 Assigning Product Ion Spectra Using the Power of Accurate Mass |
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13.14 Localization: The Final Frontier |
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13.15 Quantitative and Qualitative In Vivo Pharmacokinetic Data from a Single Injection per Sample |
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13.16 Future Opportunities |
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14 Distribution Studies of Drugs and Metabolites in Tissue by Mass Spectrometric Imaging |
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449 | (34) |
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14.2 Tissue Imaging Techniques |
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14.3 Mass Spectrometric Imaging Background |
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14.4.2 Ionization Sources |
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14.4.3 Tissue Preparation |
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14.4.5 Quantitative MALDI---MS |
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14.5 Applications of MSI for Detection of Drug Metabolites in Tissue |
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14.5.1 Localizing Drugs and Their Metabolites to Verify Targeted Drug Distribution |
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14.5.2 Analysis of Whole-Body Tissue Sections Utilizing Mass Spectral Imaging |
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14.5.3 Increasing Analyte Specificity for Mass Spectral Images |
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14.5.4 Alternative Source Options for Mass Spectral Imaging |
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15 Use of Triple Quadrupole---Linear Ion Trap Mass Spectrometry as a Single LC---MS Platform in Drug Metabolism and Pharmacokinetics Studies |
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483 | (42) |
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15.2 Instrumentation and Scan Functions |
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15.3 In vitro and In Vivo Metabolite Profiling and Identification |
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15.3.1 Metabolic Stability Analysis |
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15.3.2 Metabolic Soft Spot Determination |
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15.3.3 In vitro Species Comparison |
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15.3.4 Identification of In Vivo Oxidative Metabolites |
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15.4 Reactive Metabolite Screening and Characterization |
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15.4.1 In Vitro Reactive Metabolite Screening |
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15.4.2 Analysis of Adducts of Reactive Metabolites In Vivo |
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15.5 In vitro Drug Interaction Studies |
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15.5.1 Enzyme Kinetics Analysis |
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15.5.2 Metabolizing Enzyme Reaction Phenotyping |
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15.5.3 CYP Inhibition Assays |
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15.6 Quantification and Screening of Drugs and Small Molecules |
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15.6.1 PK and TK Sample Analysis |
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15.6.2 Tissue Imaging of Drugs |
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15.6.3 Screening of Drugs and Toxic Chemicals in Biological Samples |
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15.6.4 Analysis of Pharmaceuticals in Wastewater |
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16 Quantitative Drug Metabolism with Accelerator Mass Spectrometry |
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525 | (42) |
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16.1 Relevance of AMS to Drug Metabolism |
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16.3 Fundamentals of AMS Instruments |
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16.4 Sample Definition and Interfaces |
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16.6 LC---AMS Analysis of Drug Metabolites |
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16.7 Comparative Resolution of Fraction LC Measurements |
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16.8 Quantitative Extraction and Recovery |
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16.9 LC---AMS Background and Sensitivity |
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16.10 Clinical Aspects of AMS Metabolite Studies |
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16.11 AMS Analysis of Reactive Metabolites |
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16.12 Species Metabolite Comparison |
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16.13 New Metabolic Studies Enabled by AMS |
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References |
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17 Standard-Free Estimation of Metabolite Levels Using Nanospray Mass Spectrometry: Current Statutes and Future Directions |
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567 | (12) |
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17.2 Current Approaches for Metabolite Quantitation in the Absence of Synthetic Standards |
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17.3 Use of Nanospray for Standard-Free Metabolite Quantitation |
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17.3.1 Nanospray and Equimolar Response |
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17.3.2 Application of Nanospray in Estimating Metabolite Levels |
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18 Profiling and Characterization of Herbal Medicine and Its Metabolites Using LC---MS |
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579 | (34) |
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18.2 Characterization of Chemical Constituents in Chinese Herbal Medicine |
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18.2.1 Systematic Identification Method for Flavonols |
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18.2.2 Online Structural Characterization of Constituents in AB-8-2 |
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18.3 Profiling the Integral Metabolism of Herbal Medicine |
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18.3.1 Analysis of Parent Constituents and Metabolites in Rat Bile |
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18.3.2 Integral Metabolic Characteristics of Flavonols in AB-8-2 |
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18.3.3 Analysis of the Metabolites of AB-8-2 in Rat Urine |
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19 Liquid Chromatography Mass Spectrometry Bioanalysis of Protein Therapeutics and Biomarkers in Biological Matrices |
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613 | (32) |
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19.1 General Introduction |
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19.2 Protein Quantitation by LC---MS/MS |
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19.3 Protein Quantitation Using Intact Proteins by LC---MS/MS |
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19.4 Protein Quantitation Using Representative Peptides by LC---MS/MS |
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19.5 Consideration of Internal Standard for Protein Quantitation |
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19.6 Matrix Effect, Matrix Suppression/Enhancement, and Recovery |
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19.7 Sensitivity Enhancement via Immunocapture/Purification |
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19.8 Sensitivity Enhancement via Depletion of Abundant Proteins |
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19.9 Practical Aspects of LC---MS Assay for Proteins in Drug Development |
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19.9.1 "Fit-for-Purpose" Assay Development Strategy |
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19.9.2 LC---MS/MS Assay for Pegylated Proteins, Protein Homologs, and Posttranslational Modified Proteins |
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19.9.3 Total and Free Protein Concentration Measurement |
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19.9.4 Protein Metabolism |
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20 Mass Spectrometry in the Analysis of DNA, Protein, Peptide, and Lipid Biomarkers of Oxidative Stress |
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645 | (40) |
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20.2 DNA Biomarkers of Oxidative Stress |
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20.2.2 Oxidative Damage to DNA Bases: 8-Oxo-dGuo |
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20.2.3 Oxidative Damage to DNA Bases: Formamidopyrimidines |
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20.2.4 Lipid-Hydroperoxide-Derived Genotoxins |
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20.2.5 Lipid-Hydroperoxide-Derived DNA Adducts |
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20.2.6 DNA Adducts from Other Aldehydes and Base Propenals |
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20.3 Protein and Peptide Biomarkers of Oxidative Stress |
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20.3.2 Protein Adducts from Lipid-Hydroperoxide-Derived Bifunctional Electrophiles |
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20.3.3 Oxidized Methionine, Histidine, and Tyrosine |
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20.3.4 Lipid Hydroperoxide-Derived GSH Adducts |
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20.4 Lipid Biomarkers of Oxidative Stress |
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20.4.3 Hydroxyeicosatetraenoic Acids (HETEs) |
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20.5 Creatinine: The Common Denominator |
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20.6 Summary and Conclusions |
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21 LC---MS in Endogenous Metabolite Profiling and Small-Molecule Biomarker Discovery |
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685 | (38) |
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21.2 Measuring the Metabolome |
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21.3 Analytical Approaches |
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21.3.1 Fingerprinting Methods |
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21.3.2 Nontargeted Metabonomics |
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21.3.3 Targeted Metabonomics |
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21.4.2 Sample Preparation |
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21.4.3 Chromatography and Mass Spectral Detection |
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21.5 Data Processing and Analysis |
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21.5.1 Anatomy of an LC---MS Profile |
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Appendix |
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723 | (4) |
Index |
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727 | |